PXD050301

PXD050301 is an original dataset announced via ProteomeXchange.

Title	Comparative proteomics analysis of root and nodule mitochondria of soybean
Description	Legumes perform symbiotic nitrogen fixation through rhizobial bacteroids housed in specialised root nodules. The biochemical process is energy‐intensive and consumes a huge carbon source to generate sufficient reducing power. To maintain the symbiosis, malate is supplied by legume nodules to bacteroids as their major carbon and energy source in return for ammonium ions and nitrogenous compounds. To sustain the carbon supply to bacteroids, nodule cells undergo drastic reorganisation of carbon metabolism. Here, a comprehensive quantitative comparison of the mitochondrial proteomes between root nodules and uninoculated roots was performed using data‐independent acquisition proteomics, revealing the modulations in nodule mitochondrial proteins and pathways in response to carbon reallocation. Corroborated our findings with that from the literature, we believe nodules preferably allocate cytosolic phosphoenolpyruvates towards malate synthesis in lieu of pyruvate synthesis, and nodule mitochondria prefer malate over pyruvate as the primary source of NADH for ATP production. Moreover, the differential regulation of respiratory chain‐associated proteins suggests that nodule mitochondria could enhance the efficiencies of complexes I and IV for ATP synthesis. This study highlighted a quantitative proteomic view of the mitochondrial adaptation in soybean nodules.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:50:02.272.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Wai Ching SIN
SpeciesList	scientific name: Glycine max; NCBI TaxID: 3847;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2024-03-03 21:57:36	ID requested
1	2024-07-15 19:56:40	announced
⏵ 2	2024-10-22 06:50:02	announced	2024-10-22: Updated project metadata.

10.1111/PCE.15026;

submitter keyword: nitrogen fixation,Data-independent acquisition (DIA) proteomics, electron transport chain, Glycine max, mitochondria, malate, nodule, legume, soybean

Boon Leong Lim
contact affiliation	School of Biological Sciences, University of Hong Kong; Pokfulam, Hong Kong, China
contact email	bllim@hku.hk
lab head
Wai Ching SIN
contact affiliation	School of Life Sciences, The Chinese University of Hong Kong
contact email	waichingsin@cuhk.edu.hk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD050301
     1. Label: PRIDE project
     2. Name: Comparative proteomics analysis of root and nodule mitochondria of soybean